CRAN/E | HTSSIP

HTSSIP

High Throughput Sequencing of Stable Isotope Probing Data Analysis

Installation

About

Functions for analyzing high throughput sequencing stable isotope probing (HTS-SIP) data. Analyses include high resolution stable isotope probing (HR-SIP), multi-window high resolution stable isotope probing (MW-HR-SIP), and quantitative stable isotope probing (q-SIP).

Citation HTSSIP citation info

Key Metrics

Version 1.4.1
R ≥ 3.4.0
Published 2019-09-13 1694 days ago
Needs compilation? no
License GPL-2
License File
CRAN checks HTSSIP results

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Maintainer

Maintainer

Samuel Barnett

seb369@cornell.edu

Authors

Nicholas Youngblut

aut

Samuel Barnett

cre / ctb

Material

README
NEWS
Reference manual
Package source

Vignettes

BD shifts
HTSSIP introduction
HTS-SIP data simulation
MW-HR-SIP
Beta diversity ordinations
heavy-SIP
q-SIP
Quantifying isotope incorporation

macOS

r-release

arm64

r-oldrel

arm64

r-release

x86_64

r-oldrel

x86_64

Windows

r-devel

x86_64

r-release

x86_64

r-oldrel

x86_64

Old Sources

HTSSIP archive

Depends

R ≥ 3.4.0

Imports

igraph ≥ 1.1.2
ape ≥ 4.1
magrittr ≥ 1.5
stringr ≥1.2.0
plyr ≥ 1.8.4
dplyr ≥ 0.7.4
tidyr ≥ 0.7.2
ggplot2 ≥ 2.2.1
vegan ≥ 2.4.0
DESeq2 ≥ 1.16.1
phyloseq ≥ 1.20.0
coenocliner ≥ 0.2.2
lazyeval ≥0.2.0

Suggests

testthat
knitr
rmarkdown
doParallel